Rorug04G0288000

mediator of RNA polymerase II transcription subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000004
OG0005569
Physical Location & Seq
Reverse (-)
46113288 .. 46114481
1194 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug04G0288000.1

Sequence Viewer

Length: 1194 bp
ATGGCTATTCATCCTTGGCCACTGACCAGTAGATTGGAGGATATTCCTCTCCACCACATCACTTTTTGGATTCAGATTCATGGGCTACAGAGGGGTCACATGACTGAAGATATTGCGCGAATGATCGGTGCTCAAATGGGGACTGTTATCTCTGTCGATGATCCTACCTCCCCTTCTGGCAATCCTGGCTATCTCCATGTTCGGGTTCAGGTAGATTCTCGAGCCCCTCTTTCTCCTGGGTTCTGGTTTAGCAGTAGTGATACGGAAGCGACTTGGGCTGAAATCCGATATGAGCGATTGTCAGATTTCTGTTATCGTTGTGGTCGATTGGGCCATACCATCAGTACTTGTACTTTCCGAAGACATGCATCCGCTGACAAGCTGGGCCCTTGGATGGCAGTTCCTACTCCTCGCCGTCCTCCTCCTGACAATCACCAAAGATGGGATCGTTTCAATCATCAGGATTTTGAGAATAGGCAAAGCAGGTATGTTGAACGTAGGTATCAGCAAAATGGCACCTATGTTTCCCGCCCAAGAAACACCCTGCCTGTTACTACCGCCGGTTACGGTGCCTTTTCAGGCAACCCTTTGCCGCAGACGGGTGCCCTAATTCTTGCCCATCCACAACAGGGCAGGTGGCAACCAGTTTCAGAGGATACGTCTGATGCGCCATCACAGGCAGGTCCATCTGGCACCAAGCCCGTTGATAAGGGTAAGGAAAAATTGGATGAGTGGCCAGCCCCATCATCTCCTGAAACGCCACCTCACCCAATTTCACCTGACGTGGAGGACATGCAATTGGCAATTTCTTTGTCTCTCGCTGACCTGGCTCTTCCTCCTCCACCTCAGCATGTTCCCTCCCTAATCCTCATCTCTCATGCTACTGATCCACTTCTCTTTTTGGGCCATCATTCTGACCCAAGAGCTATGCAGGAACTCTTAGCCCACCATGAAATGCTTTTGGACCCAACTTTCTTGGATCAAAACCCAATAGACCCTCTACCAGAAGTATCTATCCCTTCTTTTCCTCCGTTTATGGACCCATATCTGTTTCAACCCAATCCCTCTACCCCTTACCCTCTCCACATCCCGACTCTTCCATCACCCACTCCTTTCCTTCCTTTATTCTCCCATGTGTTGCCAACAGAGCCGATTGCGGCTGTTCCGCCGTTTCCCCCGATGGGTCGTGTTTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
Med25_VWA

Protein Analysis

397

Amino Acids

44.33

Weight (kDa)

5.95

Isoelectric Point (pI)

53.57

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
zf-CCHC_4 PF14392 87 - 118 2.1e-08 Zinc knuckle
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AarI CACCTGC 1 cut(s) 624
Acc36I ACCTGC 3 cut(s) 474, 624, 671
AccB1I GGYRCC 4 cut(s) 515, 569, 602, 692
AccII CGCG 1 cut(s) 118
AciI CCGC 6 cut(s) 372, 529, 558, 593, 1157, 1166
AclWI GGATC 4 cut(s) 155, 453, 881, 987
AcoI YGGCCR 2 cut(s) 17, 734
AcuI CTGAAG 1 cut(s) 126
AfaI GTAC 2 cut(s) 346, 352
AfiI CCNNNNNNNGG 6 cut(s) 202, 394, 442, 599, 629, 1181
AgsI TTSAA 3 cut(s) 454, 494, 1055
AjiI CACGTC 1 cut(s) 784
AjnI CCWGG 3 cut(s) 184, 235, 825
AluBI AGCT 2 cut(s) 382, 926
AluI AGCT 2 cut(s) 382, 926
Alw21I GWGCWC 1 cut(s) 133
Alw26I GTCTC 1 cut(s) 819
AlwI GGATC 4 cut(s) 155, 453, 881, 987
Ama87I CYCGRG 1 cut(s) 219
AoxI GGCC 5 cut(s) 17, 331, 385, 734, 904
ApaI GGGCCC 1 cut(s) 389
AspLEI GCGC 2 cut(s) 118, 670
AspS9I GGNCC 7 cut(s) 331, 385, 386, 683, 904, 964, 1039
AsuHPI GGTGA 4 cut(s) 425, 758, 768, 1095
AvaI CYCGRG 1 cut(s) 219
AvaII GGWCC 3 cut(s) 683, 964, 1039
BaeGI GKGCMC 2 cut(s) 389, 607
BaeI ACNNNNGTAYC 2 cut(s) 485, 518
BalI TGGCCA 2 cut(s) 19, 736
BanI GGYRCC 4 cut(s) 515, 569, 602, 692
BanII GRGCYC 2 cut(s) 226, 389
BbsI GAAGAC 1 cut(s) 367
Bbv12I GWGCWC 1 cut(s) 133
BbvCI CCTCAGC 1 cut(s) 846
BceAI ACGGC 2 cut(s) 399, 1153
BciT130I CCWGG 3 cut(s) 186, 237, 827
BciVI GTATCC 1 cut(s) 649
BcoDI GTCTC 1 cut(s) 819
BfmI CTRYAG 1 cut(s) 86
BfuAI ACCTGC 3 cut(s) 474, 624, 671
BfuI GTATCC 1 cut(s) 649
BisI GCNGC 2 cut(s) 593, 1158
BlsI GCNGC 2 cut(s) 594, 1159
BmcAI AGTACT 1 cut(s) 346
Bme1390I CCNGG 3 cut(s) 186, 237, 827
Bme18I GGWCC 3 cut(s) 683, 964, 1039
BmeT110I CYCGRG 1 cut(s) 219
BmgBI CACGTC 1 cut(s) 784
BmgT120I GGNCC 7 cut(s) 331, 385, 386, 683, 904, 964, 1039
BmiI GGNNCC 7 cut(s) 387, 517, 571, 604, 694, 966, 1041
BmrFI CCNGG 3 cut(s) 186, 237, 827
BmsI GCATC 2 cut(s) 377, 655
BpiI GAAGAC 1 cut(s) 367
Bpu10I CCTNAGC 1 cut(s) 846
BsaJI CCNNGG 3 cut(s) 14, 236, 389
Bsc4I CCNNNNNNNGG 6 cut(s) 202, 394, 442, 599, 629, 1181
Bse118I RCCGGY 1 cut(s) 560
Bse1I ACTGG 2 cut(s) 27, 644
BseBI CCWGG 3 cut(s) 186, 237, 827
BseDI CCNNGG 3 cut(s) 14, 236, 389
BseGI GGATG 6 cut(s) 10, 368, 399, 619, 733, 1086
BseLI CCNNNNNNNGG 6 cut(s) 202, 394, 442, 599, 629, 1181
BseMII CTCAG 1 cut(s) 860
BseNI ACTGG 2 cut(s) 27, 644
BseRI GAGGAG 3 cut(s) 399, 411, 828
BseSI GKGCMC 2 cut(s) 389, 607
BseYI CCCAGC 1 cut(s) 382
Bsh1236I CGCG 1 cut(s) 118
BshFI GGCC 5 cut(s) 19, 333, 387, 736, 906
BshNI GGYRCC 4 cut(s) 515, 569, 602, 692
BsiHKAI GWGCWC 1 cut(s) 133
BsiHKCI CYCGRG 1 cut(s) 219
BsiSI CCGG 1 cut(s) 561
BslFI GGGAC 1 cut(s) 154
BslI CCNNNNNNNGG 6 cut(s) 202, 394, 442, 599, 629, 1181
BsmAI GTCTC 1 cut(s) 819
BsmFI GGGAC 1 cut(s) 154
BsnI GGCC 5 cut(s) 19, 333, 387, 736, 906
BsoBI CYCGRG 1 cut(s) 219
Bsp120I GGGCCC 1 cut(s) 385
Bsp1286I GDGCHC 4 cut(s) 133, 226, 389, 607
Bsp143I GATC 5 cut(s) 123, 160, 445, 886, 979
BspACI CCGC 6 cut(s) 372, 529, 558, 593, 1157, 1166
BspANI GGCC 5 cut(s) 19, 333, 387, 736, 906
BspCNI CTCAG 1 cut(s) 859
BspFNI CGCG 1 cut(s) 118
BspLI GGNNCC 7 cut(s) 387, 517, 571, 604, 694, 966, 1041
BspMI ACCTGC 3 cut(s) 474, 624, 671
BspPI GGATC 4 cut(s) 155, 453, 881, 987
BspQI GCTCTTC 1 cut(s) 837
BspT107I GGYRCC 4 cut(s) 515, 569, 602, 692
BsrFI RCCGGY 1 cut(s) 560
BsrI ACTGG 2 cut(s) 27, 644
BssAI RCCGGY 1 cut(s) 560
BssECI CCNNGG 3 cut(s) 14, 236, 389
BssMI GATC 5 cut(s) 123, 160, 445, 886, 979
BssT1I CCWWGG 2 cut(s) 14, 389
Bst2UI CCWGG 3 cut(s) 186, 237, 827
Bst4CI ACNGT 2 cut(s) 145, 569
Bst6I CTCTTC 2 cut(s) 837, 1101
BstC8I GCNNGC 1 cut(s) 738
BstDEI CTNAG 2 cut(s) 846, 940
BstF5I GGATG 6 cut(s) 10, 368, 399, 619, 733, 1086
BstFNI CGCG 1 cut(s) 118
BstHHI GCGC 2 cut(s) 118, 670
BstKTI GATC 5 cut(s) 126, 163, 448, 889, 982
BstMAI GTCTC 1 cut(s) 819
BstMBI GATC 5 cut(s) 123, 160, 445, 886, 979
BstMWI GCNNNNNNNGC 4 cut(s) 186, 275, 827, 1147
BstNI CCWGG 3 cut(s) 186, 237, 827
BstNSI RCATGY 3 cut(s) 368, 796, 854
BstSCI CCNGG 3 cut(s) 184, 235, 825
BstSFI CTRYAG 1 cut(s) 86
BstSLI GKGCMC 2 cut(s) 389, 607
BstUI CGCG 1 cut(s) 118
BstV2I GAAGAC 1 cut(s) 367
BstXI CCANNNNNNTGG 1 cut(s) 34
BsuI GTATCC 1 cut(s) 649
BsuRI GGCC 5 cut(s) 19, 333, 387, 736, 906
BtrI CACGTC 1 cut(s) 784
BtsCI GGATG 6 cut(s) 10, 368, 399, 619, 733, 1086
BtsIMutI CAGTG 1 cut(s) 20
BveI ACCTGC 3 cut(s) 474, 624, 671
Cac8I GCNNGC 1 cut(s) 738
CfoI GCGC 2 cut(s) 118, 670
Cfr10I RCCGGY 1 cut(s) 560
Cfr13I GGNCC 7 cut(s) 331, 385, 386, 683, 904, 964, 1039
Csp6I GTAC 2 cut(s) 345, 351
CviAII CATG 9 cut(s) 80, 100, 197, 365, 793, 851, 878, 950, 1133
CviQI GTAC 2 cut(s) 345, 351
DdeI CTNAG 2 cut(s) 846, 940
DpnI GATC 5 cut(s) 125, 162, 447, 888, 981
DpnII GATC 5 cut(s) 123, 160, 445, 886, 979
EaeI YGGCCR 2 cut(s) 17, 734
Eam1104I CTCTTC 2 cut(s) 837, 1101
EarI CTCTTC 2 cut(s) 837, 1101
EciI GGCGGA 1 cut(s) 1155
Eco130I CCWWGG 2 cut(s) 14, 389
Eco24I GRGCYC 2 cut(s) 226, 389
Eco47I GGWCC 3 cut(s) 683, 964, 1039
Eco57I CTGAAG 1 cut(s) 126
Eco88I CYCGRG 1 cut(s) 219
EcoO109I RGGNCCY 1 cut(s) 386
EcoRII CCWGG 3 cut(s) 184, 235, 825
EcoT14I CCWWGG 2 cut(s) 14, 389
EcoT22I ATGCAT 1 cut(s) 370
EcoT38I GRGCYC 2 cut(s) 226, 389
ErhI CCWWGG 2 cut(s) 14, 389
FaeI CATG 9 cut(s) 83, 103, 200, 368, 796, 854, 881, 953, 1136
FaqI GGGAC 1 cut(s) 154
FatI CATG 9 cut(s) 79, 99, 196, 364, 792, 850, 877, 949, 1132
FauI CCCGC 1 cut(s) 536
Fnu4HI GCNGC 2 cut(s) 593, 1158
FokI GGATG 5 cut(s) 355, 406, 606, 740, 1073
FriOI GRGCYC 2 cut(s) 226, 389
Fsp4HI GCNGC 2 cut(s) 593, 1158
GlaI GCGC 2 cut(s) 117, 669
GluI GCNGC 2 cut(s) 593, 1158
GsaI CCCAGC 1 cut(s) 386
HaeIII GGCC 5 cut(s) 19, 333, 387, 736, 906
HapII CCGG 1 cut(s) 561
HhaI GCGC 2 cut(s) 118, 670
Hin1II CATG 9 cut(s) 83, 103, 200, 368, 796, 854, 881, 953, 1136
Hin6I GCGC 2 cut(s) 116, 668
HinP1I GCGC 2 cut(s) 116, 668
HinfI GANTC 4 cut(s) 70, 76, 215, 1093
HpaII CCGG 1 cut(s) 561
HphI GGTGA 4 cut(s) 425, 758, 768, 1095
Hpy188I TCNGA 7 cut(s) 75, 287, 304, 359, 652, 664, 916
Hpy188III TCNNGA 5 cut(s) 219, 425, 461, 752, 1090
HpyAV CCTTC 3 cut(s) 183, 1029, 1127
HpyCH4III ACNGT 2 cut(s) 145, 569
HpyCH4IV ACGT 3 cut(s) 496, 659, 783
HpyCH4V TGCA 3 cut(s) 368, 796, 931
HpyF10VI GCNNNNNNNGC 4 cut(s) 186, 275, 827, 1147
HpyF3I CTNAG 2 cut(s) 846, 940
HpySE526I ACGT 3 cut(s) 496, 659, 783
Hsp92II CATG 9 cut(s) 83, 103, 200, 368, 796, 854, 881, 953, 1136
HspAI GCGC 2 cut(s) 116, 668
Kzo9I GATC 5 cut(s) 123, 160, 445, 886, 979
LguI GCTCTTC 1 cut(s) 837
LweI GCATC 2 cut(s) 377, 655
MaeII ACGT 3 cut(s) 496, 659, 783
MaeIII GTNAC 3 cut(s) 95, 550, 563
MalI GATC 5 cut(s) 125, 162, 447, 888, 981
MboI GATC 5 cut(s) 123, 160, 445, 886, 979
MboII GAAGA 4 cut(s) 119, 372, 824, 1088
MfeI CAATTG 1 cut(s) 797
MhlI GDGCHC 4 cut(s) 133, 226, 389, 607
MlsI TGGCCA 2 cut(s) 19, 736
MluCI AATT 5 cut(s) 609, 722, 771, 797, 804
MluNI TGGCCA 2 cut(s) 19, 736
MlyI GAGTC 1 cut(s) 1087
Mox20I TGGCCA 2 cut(s) 19, 736
Mph1103I ATGCAT 1 cut(s) 370
MscI TGGCCA 2 cut(s) 19, 736
Msp20I TGGCCA 2 cut(s) 19, 736
MspA1I CMGCKG 1 cut(s) 374
MspI CCGG 1 cut(s) 561
MspR9I CCNGG 3 cut(s) 186, 237, 827
MunI CAATTG 1 cut(s) 797
MvaI CCWGG 3 cut(s) 186, 237, 827
MvnI CGCG 1 cut(s) 118
MwoI GCNNNNNNNGC 4 cut(s) 186, 275, 827, 1147
NdeII GATC 5 cut(s) 123, 160, 445, 886, 979
NlaIII CATG 9 cut(s) 83, 103, 200, 368, 796, 854, 881, 953, 1136
NlaIV GGNNCC 7 cut(s) 387, 517, 571, 604, 694, 966, 1041
NmuCI GTSAC 1 cut(s) 95
NsiI ATGCAT 1 cut(s) 370
NspI RCATGY 3 cut(s) 368, 796, 854
PaeR7I CTCGAG 1 cut(s) 219
PaqCI CACCTGC 1 cut(s) 624
PciSI GCTCTTC 1 cut(s) 837
PcsI WCGNNNNNNNCGW 1 cut(s) 322
PfeI GAWTC 3 cut(s) 70, 76, 215
PkrI GCNGC 2 cut(s) 594, 1159
PleI GAGTC 1 cut(s) 1087
PpsI GAGTC 1 cut(s) 1087
Psp6I CCWGG 3 cut(s) 184, 235, 825
PspFI CCCAGC 1 cut(s) 382
PspGI CCWGG 3 cut(s) 184, 235, 825
PspN4I GGNNCC 7 cut(s) 387, 517, 571, 604, 694, 966, 1041
PspOMI GGGCCC 1 cut(s) 385
PspPI GGNCC 7 cut(s) 331, 385, 386, 683, 904, 964, 1039
RsaI GTAC 2 cut(s) 346, 352
RsaNI GTAC 2 cut(s) 345, 351
SapI GCTCTTC 1 cut(s) 837
SatI GCNGC 2 cut(s) 593, 1158
Sau3AI GATC 5 cut(s) 123, 160, 445, 886, 979
Sau96I GGNCC 7 cut(s) 331, 385, 386, 683, 904, 964, 1039
ScaI AGTACT 1 cut(s) 346
SchI GAGTC 1 cut(s) 1087
ScrFI CCNGG 3 cut(s) 186, 237, 827
SduI GDGCHC 4 cut(s) 133, 226, 389, 607
SfaNI GCATC 2 cut(s) 377, 655
SfcI CTRYAG 1 cut(s) 86
Sfr274I CTCGAG 1 cut(s) 219
SinI GGWCC 3 cut(s) 683, 964, 1039
SlaI CTCGAG 1 cut(s) 219
SmlI CTYRAG 1 cut(s) 219
SmoI CTYRAG 1 cut(s) 219
Sse9I AATT 5 cut(s) 609, 722, 771, 797, 804
SsiI CCGC 6 cut(s) 372, 529, 558, 593, 1157, 1166
StyD4I CCNGG 3 cut(s) 184, 235, 825
StyI CCWWGG 2 cut(s) 14, 389
TaaI ACNGT 2 cut(s) 145, 569
TaiI ACGT 3 cut(s) 499, 662, 786
TaqI TCGA 3 cut(s) 156, 220, 325
TasI AATT 5 cut(s) 609, 722, 771, 797, 804
TatI WGTACW 2 cut(s) 344, 350
TauI GCSGC 2 cut(s) 595, 1160
TfiI GAWTC 3 cut(s) 70, 76, 215
TscAI CASTG 1 cut(s) 27
TseFI GTSAC 1 cut(s) 95
Tsp45I GTSAC 1 cut(s) 95
TspDTI ATGAA 2 cut(s) 68, 966
TspGWI ACGGA 2 cut(s) 278, 1020
TspRI CASTG 1 cut(s) 27
VpaK11BI GGWCC 3 cut(s) 683, 964, 1039
XceI RCATGY 3 cut(s) 368, 796, 854
XhoI CTCGAG 1 cut(s) 219
ZrmI AGTACT 1 cut(s) 346
Zsp2I ATGCAT 1 cut(s) 370
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.